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(-) Description

Title :  CRYSTAL STRUCTURE OF BACTERIOCIN AS-48. N-DECYL-BETA-D-MALTOSIDE BOUND.
 
Authors :  M. J. Sanchez-Barrena, M. Martinez-Ripoll, A. Galvez, E. Valdivia, M. Maqueda, V. Cruz, A. Albert
Date :  25 Nov 02  (Deposition) - 20 Nov 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Peptide Antibiotic, Bacteriocin, Antibacterial Peptide, Membrane Permeabilization, Protein Crystallography, Cyclic Polypeptide, Protein Membrane Interaction (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. J. Sanchez-Barrena, M. Martinez-Ripoll, A. Galvez, E. Valdivia, M. Maqueda, V. Cruz, A. Albert
Structure Of Bacteriocin As-48: From Soluble State To Membrane Bound State
J. Mol. Biol. V. 334 541 2003
PubMed-ID: 14623193  |  Reference-DOI: 10.1016/J.JMB.2003.09.060

(-) Compounds

Molecule 1 - PEPTIDE ANTIBIOTIC AS-48
    Chains: A, B
    Organism Common: STREPTOCOCCUS LIQUEFACIENS
    Organism Scientific: ENTEROCOCCUS FAECALIS
    Organism Taxid: 1351
    Other Details: CYCLIC PROTEIN, LINK BETWEEN M1 AND W70
    Synonym: BATERIOCIN AS-48

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 8)

Asymmetric Unit (4, 8)
No.NameCountTypeFull Name
1D101Ligand/IonDECANE
2GOL1Ligand/IonGLYCEROL
3MAL1Ligand/IonMALTOSE
4SO45Ligand/IonSULFATE ION
Biological Unit 1 (4, 16)
No.NameCountTypeFull Name
1D102Ligand/IonDECANE
2GOL2Ligand/IonGLYCEROL
3MAL2Ligand/IonMALTOSE
4SO410Ligand/IonSULFATE ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:29 , LEU A:40 , LEU A:43 , D10 A:1074BINDING SITE FOR RESIDUE MAL A1073
2AC2SOFTWARELYS A:64 , ARG A:65BINDING SITE FOR RESIDUE SO4 A1072
3AC3SOFTWAREGOL A:1071 , GLU B:58 , LYS B:61 , LYS B:62 , TRP B:70 , HOH B:2010 , HOH B:2011BINDING SITE FOR RESIDUE SO4 B1071
4AC4SOFTWAREGLY B:36 , SER B:37BINDING SITE FOR RESIDUE SO4 B1072
5AC5SOFTWARELYS B:52 , LYS B:56 , LYS B:64 , ARG B:65BINDING SITE FOR RESIDUE SO4 B1073
6AC6SOFTWAREASN B:17 , GLY B:23 , VAL B:25 , LYS B:52 , LYS B:64BINDING SITE FOR RESIDUE SO4 B1074
7AC7SOFTWARESER A:37 , LEU A:40 , MAL A:1073 , LEU B:40 , LEU B:43 , ALA B:44BINDING SITE FOR RESIDUE D10 A1074
8AC8SOFTWAREGLU A:58 , TRP A:70 , HOH A:2009 , GLU B:58 , SO4 B:1071BINDING SITE FOR RESIDUE GOL A1071

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1O84)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1O84)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1O84)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1O84)

(-) Exons   (0, 0)

(no "Exon" information available for 1O84)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:70
 aligned with Q47765_ENTFL | Q47765 from UniProtKB/TrEMBL  Length:105

    Alignment length:70
                                    45        55        65        75        85        95       105
         Q47765_ENTFL    36 MAKEFGIPAAVAGTVLNVVEAGGWVTTIVSILTAVGSGGLSLLAAAGRESIKAYLKKEIKKKGKRAVIAW 105
               SCOP domains d1o84a_ A: Bacteriocin AS-48                                           SCOP domains
               CATH domains 1o84A00 A:1-70 Bacteriocin As-48; Chain A                              CATH domains
               Pfam domains ---------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh.hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------- Transcript
                 1o84 A   1 MAKEFGIPAAVAGTVLNVVEAGGWVTTIVSILTAVGSGGLSLLAAAGRESIKAYLKKEIKKKGKRAVIAW  70
                                    10        20        30        40        50        60        70


Chain B from PDB  Type:PROTEIN  Length:70
 aligned with Q47765_ENTFL | Q47765 from UniProtKB/TrEMBL  Length:105

    Alignment length:70
                                    45        55        65        75        85        95       105
         Q47765_ENTFL    36 MAKEFGIPAAVAGTVLNVVEAGGWVTTIVSILTAVGSGGLSLLAAAGRESIKAYLKKEIKKKGKRAVIAW 105
               SCOP domains d1o84b_ B: Bacteriocin AS-48                                           SCOP domains
               CATH domains 1o84B00 B:1-70 Bacteriocin As-48; Chain A                              CATH domains
               Pfam domains ---------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh.hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------- Transcript
                 1o84 B   1 MAKEFGIPAAVAGTVLNVVEAGGWVTTIVSILTAVGSGGLSLLAAAGRESIKAYLKKEIKKKGKRAVIAW  70
                                    10        20        30        40        50        60        70
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1O84)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q47765_ENTFL | Q47765)
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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  1o84
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q47765_ENTFL | Q47765: 1e68 1o82 1o83 4rgd

(-) Related Entries Specified in the PDB File

1e68 SOLUTION STRUCTURE OF BACTERIOCIN AS-48
1o82 X-RAY STRUCTURE OF BACTERIOCIN AS-48 AT PH 4.5. SULPHATE BOUND FORM
1o83 CRYSTAL STRUCTURE OF BACTERIOCIN AS-48 AT PH 7.5, PHOSPHATE BOUND. CRYSTAL FORM I